Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold64
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 7997333
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 95991 characters in sequence are not A, C, G, or T
File 21 of 45
Found at i:3924930 original size:23 final size:22
Alignment explanation
Indices: 3924903--3924955 Score: 61
Period size: 23 Copynumber: 2.4 Consensus size: 22
3924893 TTTAAGCATC
3924903 TAAATTAATTAAATATTATATT
1 TAAATTAATTAAATATTATATT
* ** *
3924925 TAAAATTTATTATGTATTTTATT
1 T-AAATTAATTAAATATTATATT
3924948 TAAATTAA
1 TAAATTAA
3924956 ATTTCAAATT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
22 7 0.28
23 18 0.72
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (22 bp):
TAAATTAATTAAATATTATATT
Found at i:3928883 original size:25 final size:27
Alignment explanation
Indices: 3928855--3928905 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
3928845 ATTTTGATAT
3928855 ATTTATAA-TAT-TTAT-ATATAAAATA
1 ATTTATAATTATATTATAAT-TAAAATA
3928880 ATTTATAATTATATTATAATTAAAAT
1 ATTTATAATTATATTATAATTAAAAT
3928906 TTTTAATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
25 8 0.35
26 3 0.13
27 10 0.43
28 2 0.09
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (27 bp):
ATTTATAATTATATTATAATTAAAATA
Found at i:3928969 original size:12 final size:12
Alignment explanation
Indices: 3928942--3929010 Score: 50
Period size: 12 Copynumber: 5.3 Consensus size: 12
3928932 TTTTTTATAA
* *
3928942 TTTAAAATAATA
1 TTTAAAATTATT
3928954 TTTAAAATTATT
1 TTTAAAATTATT
*
3928966 TTTATAATTAATTTT
1 TTTAAAATT-A--TT
3928981 TTTAAAATTTATT
1 TTTAAAA-TTATT
3928994 ATTT-AAATATATT
1 -TTTAAAAT-TATT
3929007 TTTA
1 TTTA
3929011 TTAAATTAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 13
0.73 0.06 0.21
Matches are distributed among these distances:
12 22 0.48
13 10 0.22
14 3 0.07
15 9 0.20
16 2 0.04
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (12 bp):
TTTAAAATTATT
Found at i:3928984 original size:15 final size:16
Alignment explanation
Indices: 3928959--3928997 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
3928949 TAATATTTAA
*
3928959 AATTATTTTTATAATT
1 AATTATTTTTAAAATT
3928975 AATT-TTTTTAAAATT
1 AATTATTTTTAAAATT
*
3928990 TATTATTT
1 AATTATTT
3928998 AAATATATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 13 0.65
16 7 0.35
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
AATTATTTTTAAAATT
Found at i:3928988 original size:27 final size:28
Alignment explanation
Indices: 3928954--3929015 Score: 76
Period size: 28 Copynumber: 2.2 Consensus size: 28
3928944 TAAAATAATA
3928954 TTTAAAA-TTATT-TTTATAAT-TAATTTT
1 TTTAAAATTTATTATTTA-AATAT-ATTTT
3928981 TTTAAAATTTATTATTTAAATATATTTT
1 TTTAAAATTTATTATTTAAATATATTTT
3929009 TATTAAA
1 T-TTAAA
3929016 TTAAATAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
27 7 0.23
28 14 0.45
29 10 0.32
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (28 bp):
TTTAAAATTTATTATTTAAATATATTTT
Found at i:3929039 original size:24 final size:26
Alignment explanation
Indices: 3928997--3929063 Score: 72
Period size: 24 Copynumber: 2.7 Consensus size: 26
3928987 ATTTATTATT
*
3928997 TAAATATATTTT-TATTA-AATTAA-A
1 TAAAT-TATTTTATATTATAAATAATA
*
3929021 TAAATTA-TTTA-ATTATAAATAATT
1 TAAATTATTTTATATTATAAATAATA
3929045 TAAATTATTTTATATTATA
1 TAAATTATTTTATATTATA
3929064 TTTTTATTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
22 7 0.19
23 7 0.19
24 12 0.33
25 4 0.11
26 6 0.17
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (26 bp):
TAAATTATTTTATATTATAAATAATA
Found at i:3929040 original size:15 final size:16
Alignment explanation
Indices: 3929020--3929052 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
3929010 ATTAAATTAA
*
3929020 ATAAATTATTT-AATT
1 ATAAATAATTTAAATT
3929035 ATAAATAATTTAAATT
1 ATAAATAATTTAAATT
3929051 AT
1 AT
3929053 TTTATATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
ATAAATAATTTAAATT
Found at i:3929101 original size:22 final size:21
Alignment explanation
Indices: 3929048--3929101 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 21
3929038 AATAATTTAA
* **
3929048 ATTATTTTATATTATATTTTT
1 ATTATTTTATAATATATTCGT
3929069 ATTAATTTTATAATATATTCGT
1 ATT-ATTTTATAATATATTCGT
3929091 ATTATTATTAT
1 ATTATT-TTAT
3929102 CCTACTGTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 6 0.21
22 22 0.79
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (21 bp):
ATTATTTTATAATATATTCGT
Found at i:3930053 original size:3 final size:3
Alignment explanation
Indices: 3930045--3930070 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
3930035 AAACGCCAAA
3930045 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
3930071 ATTCAAACAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:3930491 original size:12 final size:12
Alignment explanation
Indices: 3930474--3930501 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
3930464 TCATAAAAAT
3930474 ATATAAAATTTA
1 ATATAAAATTTA
3930486 ATATAAAATTTA
1 ATATAAAATTTA
3930498 ATAT
1 ATAT
3930502 TTTATTAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (12 bp):
ATATAAAATTTA
Found at i:3935614 original size:31 final size:30
Alignment explanation
Indices: 3935579--3935665 Score: 104
Period size: 30 Copynumber: 2.9 Consensus size: 30
3935569 TTAGATATTT
3935579 ATTAAAAATTAAAATTTTATTTAAATATAAA
1 ATTAAAAATTAAAATTTTATTTAAATAT-AA
* *
3935610 ATT-AAAATTGATAATTTTATTTAAATGTAA
1 ATTAAAAATT-AAAATTTTATTTAAATATAA
* **
3935640 ATTAAAACTTAAAAAATTATTTAAAT
1 ATTAAAAATTAAAATTTTATTTAAAT
3935666 TAATAAAAAT
Statistics
Matches: 48, Mismatches: 6, Indels: 5
0.81 0.10 0.08
Matches are distributed among these distances:
30 24 0.50
31 24 0.50
ACGTcount: A:0.54, C:0.01, G:0.02, T:0.43
Consensus pattern (30 bp):
ATTAAAAATTAAAATTTTATTTAAATATAA
Found at i:3936421 original size:15 final size:14
Alignment explanation
Indices: 3936401--3936456 Score: 57
Period size: 13 Copynumber: 4.1 Consensus size: 14
3936391 AATAAAAAAA
3936401 TATTATATGATATAT
1 TATTATAT-ATATAT
*
3936416 TATTATAT-TATAA
1 TATTATATATATAT
3936429 T-TTATATA-ATATT
1 TATTATATATATA-T
3936442 TATTAT-TATATAT
1 TATTATATATATAT
3936455 TA
1 TA
3936457 AAATTTATAT
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
12 9 0.26
13 11 0.31
14 7 0.20
15 8 0.23
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (14 bp):
TATTATATATATAT
Found at i:3936455 original size:7 final size:7
Alignment explanation
Indices: 3936404--3936456 Score: 51
Period size: 7 Copynumber: 8.0 Consensus size: 7
3936394 AAAAAAATAT
*
3936404 TATATGA
1 TATATTA
3936411 TATATTA
1 TATATTA
3936418 TTATATTA
1 -TATATTA
3936426 TA-ATT-
1 TATATTA
*
3936431 TATATAA
1 TATATTA
3936438 TAT-TTA
1 TATATTA
3936444 T-TATTA
1 TATATTA
3936450 TATATTA
1 TATATTA
3936457 AAATTTATAT
Statistics
Matches: 38, Mismatches: 3, Indels: 10
0.75 0.06 0.20
Matches are distributed among these distances:
5 3 0.08
6 12 0.32
7 16 0.42
8 7 0.18
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.57
Consensus pattern (7 bp):
TATATTA
Found at i:3936826 original size:24 final size:24
Alignment explanation
Indices: 3936779--3936832 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
3936769 AAATTATTAG
**
3936779 TTAATTAATAAAAATTATTTAAAT
1 TTAATTAATAAAAATTATAAAAAT
3936803 TTAATT-ATAAAAATTAATAAAAAT
1 TTAATTAATAAAAATT-ATAAAAAT
*
3936827 TAAATT
1 TTAATT
3936833 TTAATATTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
23 9 0.35
24 17 0.65
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (24 bp):
TTAATTAATAAAAATTATAAAAAT
Found at i:3936829 original size:23 final size:24
Alignment explanation
Indices: 3936779--3936829 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 24
3936769 AAATTATTAG
* * *
3936779 TTAATTAATAAAAATTATTTAAAT
1 TTAATTAATAAAAATTAATAAAAA
3936803 TTAATT-ATAAAAATTAATAAAAA
1 TTAATTAATAAAAATTAATAAAAA
3936826 TTAA
1 TTAA
3936830 ATTTTAATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
23 18 0.75
24 6 0.25
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (24 bp):
TTAATTAATAAAAATTAATAAAAA
Found at i:3936876 original size:22 final size:21
Alignment explanation
Indices: 3936834--3936886 Score: 56
Period size: 22 Copynumber: 2.6 Consensus size: 21
3936824 AATTAAATTT
* **
3936834 TAATATTTAATATTTTTTAAA
1 TAATATTTAAAATTTGATAAA
3936855 TAATAATTTAAAATTTGATAAA
1 TAAT-ATTTAAAATTTGATAAA
3936877 -AA-ATTTAAAA
1 TAATATTTAAAA
3936887 AATTTTCAAG
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
19 8 0.29
21 6 0.21
22 14 0.50
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (21 bp):
TAATATTTAAAATTTGATAAA
Found at i:3937868 original size:14 final size:15
Alignment explanation
Indices: 3937849--3937885 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
3937839 AATAATAATT
*
3937849 AATATTTATAAA-AA
1 AATATTTAAAAATAA
3937863 AATATTTAAAAATAA
1 AATATTTAAAAATAA
3937878 AAT-TTTAA
1 AATATTTAA
3937886 TTTTTAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 16 0.76
15 5 0.24
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
AATATTTAAAAATAA
Found at i:3938246 original size:12 final size:12
Alignment explanation
Indices: 3938229--3938254 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
3938219 GAAATAAAGG
3938229 GAAAAAAAGAAA
1 GAAAAAAAGAAA
3938241 GAAAAAAAGAAA
1 GAAAAAAAGAAA
3938253 GA
1 GA
3938255 TGGAATTATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (12 bp):
GAAAAAAAGAAA
Found at i:3939179 original size:29 final size:30
Alignment explanation
Indices: 3939147--3939219 Score: 68
Period size: 25 Copynumber: 2.6 Consensus size: 30
3939137 AAAAATAATA
3939147 AAATAAAAATAAATATATAAA-TTACTATT
1 AAATAAAAATAAATATATAAATTTACTATT
* * *
3939176 AAAT----TTAAATATTTAAATTTATTATT
1 AAATAAAAATAAATATATAAATTTACTATT
3939202 -AATAAAAATAAAATATAT
1 AAATAAAAAT-AAATATAT
3939220 TTAAATATTT
Statistics
Matches: 33, Mismatches: 5, Indels: 11
0.67 0.10 0.22
Matches are distributed among these distances:
25 14 0.42
26 7 0.21
29 5 0.15
30 7 0.21
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.40
Consensus pattern (30 bp):
AAATAAAAATAAATATATAAATTTACTATT
Found at i:3939227 original size:65 final size:66
Alignment explanation
Indices: 3939112--3939236 Score: 150
Period size: 65 Copynumber: 1.9 Consensus size: 66
3939102 ATATTTAAAT
3939112 ATTTAAATTATTAAATTAATATTTTAAAAATAATAAAATAAAAATAAATATATAA-ATTACTATT
1 ATTTAAATTATTAAATT-ATATTTTAAAAATAATAAAATAAAAATAAATATATAATATTACTATT
3939176 AA
65 AA
* ** *
3939178 ATTTAAA-TATTTAAATT-TATTATTAATAAA-AATAAAATATATTTAAATATTTAATATTA
1 ATTTAAATTA-TTAAATTATATT-TTAA-AAATAATAAAATAAAAATAAATATATAATATTA
3939237 TCAAAATAAA
Statistics
Matches: 51, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
64 4 0.08
65 26 0.51
66 21 0.41
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (66 bp):
ATTTAAATTATTAAATTATATTTTAAAAATAATAAAATAAAAATAAATATATAATATTACTATTA
A
Found at i:3939236 original size:34 final size:31
Alignment explanation
Indices: 3939184--3939246 Score: 81
Period size: 33 Copynumber: 1.9 Consensus size: 31
3939174 TTAAATTTAA
*
3939184 ATATTTAAATTTATTATTAATAAAAATAAAAT
1 ATATTTAAATTTAATATT-ATAAAAATAAAAT
*
3939216 ATATTTAAATATTTAATATTATCAAAATAAA
1 ATATTT-AA-ATTTAATATTATAAAAATAAA
3939247 TTAAAAAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
32 6 0.22
33 12 0.44
34 9 0.33
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.43
Consensus pattern (31 bp):
ATATTTAAATTTAATATTATAAAAATAAAAT
Found at i:3939255 original size:40 final size:41
Alignment explanation
Indices: 3939173--3939269 Score: 94
Period size: 40 Copynumber: 2.4 Consensus size: 41
3939163 ATAAATTACT
* * *
3939173 ATTAAATTTAAATATTTAAATTTATTATTAATAAAAATAAA
1 ATTATATTTAAATATTTAAATTTATCATAAATAAAAATAAA
3939214 A-TATATTTAAATATTT-AATATTATCA-AAATAAATTAA-AAA
1 ATTATATTTAAATATTTAAAT-TTATCATAAATAAA--AATAAA
*
3939254 ATTTATAATTAAATAT
1 A-TTATATTTAAATAT
3939270 AGTATTTAAA
Statistics
Matches: 47, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
39 9 0.19
40 23 0.49
41 3 0.06
42 12 0.26
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (41 bp):
ATTATATTTAAATATTTAAATTTATCATAAATAAAAATAAA
Found at i:3941211 original size:16 final size:16
Alignment explanation
Indices: 3941165--3941214 Score: 64
Period size: 16 Copynumber: 3.1 Consensus size: 16
3941155 CAATTGATTT
*
3941165 ATTATAATAAAATAAA
1 ATTATAATAAAATAGA
* *
3941181 AATATAATGAAATAGA
1 ATTATAATAAAATAGA
*
3941197 ATTAAAATAAAATAGA
1 ATTATAATAAAATAGA
3941213 AT
1 AT
3941215 AGTTATAATA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.66, C:0.00, G:0.06, T:0.28
Consensus pattern (16 bp):
ATTATAATAAAATAGA
Found at i:3942310 original size:23 final size:25
Alignment explanation
Indices: 3942269--3942314 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
3942259 TAAAAATAAT
3942269 ATATTAAATATAAATAATTTTAAAA
1 ATATTAAATATAAATAATTTTAAAA
3942294 ATATTAAATA-AAA-AATTTTAA
1 ATATTAAATATAAATAATTTTAA
3942315 TCAATGTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 8 0.38
24 3 0.14
25 10 0.48
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (25 bp):
ATATTAAATATAAATAATTTTAAAA
Found at i:3942614 original size:20 final size:20
Alignment explanation
Indices: 3942570--3942630 Score: 70
Period size: 20 Copynumber: 3.0 Consensus size: 20
3942560 ATTTTTAATT
3942570 ATTA-ATTATATTAAATTAAAAA
1 ATTATATTA-ATTAAATT--AAA
3942592 ATTATATTAATTAAATTAAA
1 ATTATATTAATTAAATTAAA
* *
3942612 ATTATTTTAATTAATTTAA
1 ATTATATTAATTAAATTAA
3942631 TCTGATCAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
20 20 0.56
22 12 0.33
23 4 0.11
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (20 bp):
ATTATATTAATTAAATTAAA
Found at i:3942671 original size:24 final size:23
Alignment explanation
Indices: 3942638--3942701 Score: 74
Period size: 24 Copynumber: 2.7 Consensus size: 23
3942628 TAATCTGATC
*
3942638 AATTATAATTATTTATATTTTAA
1 AATTATAATTATTTATAATTTAA
*
3942661 AATTATAAATTTTTTATAATTTAAA
1 AATTAT-AATTATTTATAATTT-AA
*
3942686 TAAATATAATTATTTA
1 -AATTATAATTATTTA
3942702 ATAAATATTT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
23 6 0.18
24 13 0.38
25 10 0.29
26 5 0.15
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (23 bp):
AATTATAATTATTTATAATTTAA
Found at i:3944625 original size:10 final size:10
Alignment explanation
Indices: 3944612--3944665 Score: 56
Period size: 11 Copynumber: 5.2 Consensus size: 10
3944602 AATTAAAAAA
3944612 TATTAATTTT
1 TATTAATTTT
3944622 TATTTAATTTT
1 TA-TTAATTTT
*
3944633 TAATAA-TTT
1 TATTAATTTT
*
3944642 TATATATTTTT
1 TAT-TAATTTT
3944653 TATTAAATTTT
1 TATT-AATTTT
3944664 TA
1 TA
3944666 AAACATGAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
9 5 0.14
10 8 0.22
11 23 0.64
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (10 bp):
TATTAATTTT
Found at i:3944770 original size:26 final size:25
Alignment explanation
Indices: 3944741--3944814 Score: 64
Period size: 26 Copynumber: 2.8 Consensus size: 25
3944731 TACAATATAT
3944741 TTAATTATATTATATAATTAAAAAAA
1 TTAATTATATTATA-AATTAAAAAAA
*
3944767 TTAATTTTAAATATTA-AAATT--AAAAT
1 TTAA--TT--ATATTATAAATTAAAAAAA
3944793 TTAACTTATATTATAAATTAAA
1 TTAA-TTATATTATAAATTAAA
3944815 TTAATTTTTA
Statistics
Matches: 39, Mismatches: 2, Indels: 14
0.71 0.04 0.25
Matches are distributed among these distances:
23 6 0.15
24 5 0.13
25 2 0.05
26 13 0.33
28 6 0.15
29 1 0.03
30 6 0.15
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (25 bp):
TTAATTATATTATAAATTAAAAAAA
Found at i:3946726 original size:21 final size:21
Alignment explanation
Indices: 3946673--3946727 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
3946663 AATTTAAATT
* *
3946673 ATTAAAAATTAATATATAAAA
1 ATTAAAAATTAAAAAATAAAA
* **
3946694 ATTTAATTTTAAAAAATAAAA
1 ATTAAAAATTAAAAAATAAAA
3946715 ATTAAAAATTAAA
1 ATTAAAAATTAAA
3946728 TCCGTTAATT
Statistics
Matches: 26, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (21 bp):
ATTAAAAATTAAAAAATAAAA
Found at i:3946727 original size:14 final size:14
Alignment explanation
Indices: 3946666--3946728 Score: 65
Period size: 14 Copynumber: 4.4 Consensus size: 14
3946656 TTAACTGAAT
3946666 TTAAATTATTAAAAA
1 TTAAA-TATTAAAAA
3946681 TT-AATATATAAAAA
1 TTAAATAT-TAAAAA
* *
3946695 TTTAATTTTAAAAA
1 TTAAATATTAAAAA
* *
3946709 ATAAAAATTAAAAA
1 TTAAATATTAAAAA
3946723 TTAAAT
1 TTAAAT
3946729 CCGTTAATTT
Statistics
Matches: 39, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
13 3 0.08
14 30 0.77
15 6 0.15
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (14 bp):
TTAAATATTAAAAA
Found at i:3946950 original size:16 final size:16
Alignment explanation
Indices: 3946929--3946962 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
3946919 TCATGTGGAA
*
3946929 AAAATTATTTATTTTT
1 AAAATTATTTATATTT
*
3946945 AAAATTTTTTATATTT
1 AAAATTATTTATATTT
3946961 AA
1 AA
3946963 TAGTTATATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
AAAATTATTTATATTT
Found at i:3953492 original size:29 final size:29
Alignment explanation
Indices: 3953450--3953537 Score: 149
Period size: 29 Copynumber: 3.0 Consensus size: 29
3953440 AGTCAAGTGG
*
3953450 AAGAGATCCGAATACAGAGCATTTTTAAT
1 AAGAGATCCGAATACAGAGCATTTTCAAT
3953479 AAGAGATCCGAATACAGAGCATTTTCAAT
1 AAGAGATCCGAATACAGAGCATTTTCAAT
* *
3953508 AAGAGATCCAAATACAGAGCATATTCAAT
1 AAGAGATCCGAATACAGAGCATTTTCAAT
3953537 A
1 A
3953538 TATTATAAAT
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 56 1.00
ACGTcount: A:0.44, C:0.16, G:0.16, T:0.24
Consensus pattern (29 bp):
AAGAGATCCGAATACAGAGCATTTTCAAT
Found at i:3954530 original size:33 final size:33
Alignment explanation
Indices: 3954493--3954561 Score: 86
Period size: 33 Copynumber: 2.1 Consensus size: 33
3954483 ATTTGATATC
*
3954493 ATTTAATGAGTTTAT-TTTTATATTTAATTTTAA
1 ATTTAATGAGTTTATATTTGA-ATTTAATTTTAA
* * *
3954526 ATTTAATTATTTTATATTTGAATTTAATTTTGA
1 ATTTAATGAGTTTATATTTGAATTTAATTTTAA
3954559 ATT
1 ATT
3954562 GAGATTTTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
33 27 0.87
34 4 0.13
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (33 bp):
ATTTAATGAGTTTATATTTGAATTTAATTTTAA
Found at i:3954539 original size:21 final size:22
Alignment explanation
Indices: 3954510--3954554 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
3954500 GAGTTTATTT
3954510 TTATATTTA-ATTTTAAATTTAA
1 TTATATTTATA-TTTAAATTTAA
*
3954532 TTAT-TTTATATTTGAATTTAA
1 TTATATTTATATTTAAATTTAA
3954553 TT
1 TT
3954555 TTGAATTGAG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 16 0.76
22 5 0.24
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (22 bp):
TTATATTTATATTTAAATTTAA
Found at i:3954551 original size:27 final size:28
Alignment explanation
Indices: 3954508--3954561 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 28
3954498 ATGAGTTTAT
3954508 TTTTATATTTAATTTTAAATTT-AATTA
1 TTTTATATTTAATTTTAAATTTGAATTA
*
3954535 TTTTATATTTGAA-TTTAATTTTGAATT
1 TTTTATATTT-AATTTTAAATTTGAATT
3954562 GAGATTTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
27 18 0.75
28 6 0.25
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (28 bp):
TTTTATATTTAATTTTAAATTTGAATTA
Found at i:3954576 original size:33 final size:33
Alignment explanation
Indices: 3954514--3954576 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 33
3954504 TTATTTTTAT
* *
3954514 ATTTAATTTTAAATTTAATTATTTTATATTTGA
1 ATTTAATTTTAAATTGAATTATTTAATATTTGA
*
3954547 ATTTAATTTTGAATTGAGATT-TTTAATATT
1 ATTTAATTTTAAATTGA-ATTATTTAATATT
3954577 AAATAAAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
33 23 0.88
34 3 0.12
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.59
Consensus pattern (33 bp):
ATTTAATTTTAAATTGAATTATTTAATATTTGA
Found at i:3956290 original size:18 final size:18
Alignment explanation
Indices: 3956269--3956423 Score: 101
Period size: 18 Copynumber: 9.3 Consensus size: 18
3956259 ATTAAATTAT
3956269 TAAATATATAATATAATA
1 TAAATATATAATATAATA
3956287 TAAATATAT--T-T--T-
1 TAAATATATAATATAATA
* *
3956299 TAAA-AT-TTATATAAAA
1 TAAATATATAATATAATA
3956315 TAAAT-TATTAATAT-ATA
1 TAAATATA-TAATATAATA
*
3956332 TAAATTATATAA-ATTATA
1 TAAA-TATATAATATAATA
*
3956350 -AAATATTTTAAATATAAT-
1 TAAATA-TAT-AATATAATA
*
3956368 TAAA-ATATAATAAAATA
1 TAAATATATAATATAATA
3956385 TATAA-ATATAATATAATA
1 TA-AATATATAATATAATA
3956403 TAAATATATAA-AT-ATA
1 TAAATATATAATATAATA
3956419 TAAAT
1 TAAAT
3956424 TTAAATTTAA
Statistics
Matches: 110, Mismatches: 8, Indels: 40
0.70 0.05 0.25
Matches are distributed among these distances:
10 1 0.01
11 2 0.02
12 5 0.05
13 2 0.02
15 1 0.01
16 23 0.21
17 21 0.19
18 46 0.42
19 9 0.08
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
TAAATATATAATATAATA
Found at i:3956294 original size:11 final size:11
Alignment explanation
Indices: 3956271--3956410 Score: 70
Period size: 11 Copynumber: 13.1 Consensus size: 11
3956261 TAAATTATTA
3956271 AATATATAATAT
1 AATATA-AATAT
3956283 AATATAAATAT
1 AATATAAATAT
* *
3956294 ATTTTTAAA-ATT
1 A-ATATAAATA-T
*
3956306 TATATAAA-AT
1 AATATAAATAT
*
3956316 AAATTATTAATAT
1 -AA-TATAAATAT
3956329 -ATATAAAT-T
1 AATATAAATAT
3956338 -ATATAAAT-T
1 AATATAAATAT
3956347 -ATA-AAATAT
1 AATATAAATAT
*
3956356 --TTTAAATAT
1 AATATAAATAT
3956365 AAT-TAAAATAT
1 AATAT-AAATAT
3956376 AATA-AAATAT
1 AATATAAATAT
*
3956386 ATAAATATAATAT
1 A-ATATA-AATAT
3956399 AATATAAATAT
1 AATATAAATAT
3956410 A
1 A
3956411 TAAATATATA
Statistics
Matches: 103, Mismatches: 11, Indels: 29
0.72 0.08 0.20
Matches are distributed among these distances:
8 5 0.05
9 20 0.19
10 15 0.15
11 33 0.32
12 22 0.21
13 8 0.08
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (11 bp):
AATATAAATAT
Found at i:3956350 original size:71 final size:72
Alignment explanation
Indices: 3956248--3956422 Score: 193
Period size: 71 Copynumber: 2.5 Consensus size: 72
3956238 TTATTATATG
* * * * *
3956248 AATATGATATGAT-TAAATTAT-TAAATATATAATATAATATAAATATATTTTTAAAATTTATAT
1 AATATAATATAATATAAATTATATAAATATATAAAATAATATAAATATA--ATTAAAATATA-AT
3956311 AAAATAAAT-
63 AAAATAAATA
* * *
3956320 TAT-TAATAT-ATATAAATTATATAAAT-TATAAAATATTTTAAATATAATTAAAATATAATAAA
1 AATATAATATAATATAAATTATATAAATATATAAAATAATATAAATATAATTAAAATATAATAAA
*
3956382 ATATATA
66 ATAAATA
3956389 AATATAATATAATATAAA-TATATAAATATATAAA
1 AATATAATATAATATAAATTATATAAATATATAAA
3956423 TTTAAATTTA
Statistics
Matches: 88, Mismatches: 9, Indels: 13
0.80 0.08 0.12
Matches are distributed among these distances:
68 10 0.11
69 11 0.12
70 17 0.19
71 43 0.49
72 7 0.08
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.41
Consensus pattern (72 bp):
AATATAATATAATATAAATTATATAAATATATAAAATAATATAAATATAATTAAAATATAATAAA
ATAAATA
Found at i:3956351 original size:16 final size:16
Alignment explanation
Indices: 3956305--3956430 Score: 83
Period size: 16 Copynumber: 8.1 Consensus size: 16
3956295 TTTTTAAAAT
3956305 TTATATAAA--ATAAA
1 TTATATAAATTATAAA
3956319 TTAT-TAATATATATAAA
1 TTATATAA-AT-TATAAA
3956336 TTATATAAATTATAAA
1 TTATATAAATTATAAA
* *
3956352 ATATTTTAAA-TAT-AA
1 TTA-TATAAATTATAAA
*
3956367 TTA-A-AATATAATAAA
1 TTATATAA-ATTATAAA
*
3956382 ATATATAAA-TATAATA
1 TTATATAAATTATAA-A
*
3956398 TAATATAAATATATAAA
1 TTATATAAAT-TATAAA
3956415 -TATATAAATT-TAAA
1 TTATATAAATTATAAA
3956429 TT
1 TT
3956431 TAATTCTATT
Statistics
Matches: 87, Mismatches: 10, Indels: 29
0.69 0.08 0.23
Matches are distributed among these distances:
12 2 0.02
13 4 0.05
14 11 0.13
15 14 0.16
16 29 0.33
17 19 0.22
18 8 0.09
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TTATATAAATTATAAA
Found at i:3956799 original size:22 final size:22
Alignment explanation
Indices: 3956773--3956814 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
3956763 TCCCATTTTT
*
3956773 TAATATAATAAATATAATTATG
1 TAATATAATAAAAATAATTATG
3956795 TAATATAATAAAAATAATTA
1 TAATATAATAAAAATAATTA
3956815 AAATATTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (22 bp):
TAATATAATAAAAATAATTATG
Found at i:3956833 original size:24 final size:25
Alignment explanation
Indices: 3956797--3956898 Score: 100
Period size: 24 Copynumber: 4.0 Consensus size: 25
3956787 TAATTATGTA
*
3956797 ATATAATAAAAATAATTAAAATATT
1 ATATAATATAAATAATTAAAATATT
** *
3956822 ATATAA-ATAAATAATATTAATGTAAT
1 ATATAATATAAAT-A-ATTAAAATATT
* *
3956848 ATAAATATATAAATATTTAAAAT-TT
1 ATATA-ATATAAATAATTAAAATATT
*
3956873 ATATAATATAAATTATTAAAATATT
1 ATATAATATAAATAATTAAAATATT
3956898 A
1 A
3956899 AAAATTATAT
Statistics
Matches: 60, Mismatches: 12, Indels: 10
0.73 0.15 0.12
Matches are distributed among these distances:
24 20 0.33
25 15 0.25
26 17 0.28
27 2 0.03
28 6 0.10
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.40
Consensus pattern (25 bp):
ATATAATATAAATAATTAAAATATT
Found at i:3956839 original size:18 final size:20
Alignment explanation
Indices: 3956816--3956863 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
3956806 AAATAATTAA
3956816 AATATT-ATATAA-ATAAAT
1 AATATTAATATAATATAAAT
*
3956834 AATATTAATGTAATATAAAT
1 AATATTAATATAATATAAAT
*
3956854 -ATATAAATAT
1 AATATTAATAT
3956864 TTAAAATTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
18 6 0.24
19 13 0.52
20 6 0.24
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (20 bp):
AATATTAATATAATATAAAT
Found at i:3956862 original size:32 final size:32
Alignment explanation
Indices: 3956778--3956885 Score: 89
Period size: 32 Copynumber: 3.5 Consensus size: 32
3956768 TTTTTTAATA
* * *
3956778 TAATA-AATATAATTATGT-AATATAATAAAAA
1 TAATATAATATAAATATATAAATA-AATAAAAT
* * *
3956809 TAAT-TAAAAT-ATTATATAAATAAATAATAT
1 TAATATAATATAAATATATAAATAAATAAAAT
* **
3956839 TAATGTAATATAAATATATAAATATTTAAAAT
1 TAATATAATATAAATATATAAATAAATAAAAT
*
3956871 TTATATAATATAAAT
1 TAATATAATATAAAT
3956886 TATTAAAATA
Statistics
Matches: 62, Mismatches: 11, Indels: 7
0.77 0.14 0.09
Matches are distributed among these distances:
30 16 0.26
31 17 0.27
32 29 0.47
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (32 bp):
TAATATAATATAAATATATAAATAAATAAAAT
Found at i:3956868 original size:52 final size:47
Alignment explanation
Indices: 3956775--3956885 Score: 136
Period size: 52 Copynumber: 2.3 Consensus size: 47
3956765 CCATTTTTTA
3956775 ATAT-AATAAATATAATTATGTAATATAATAAAAATAATTAAAATATT
1 ATATAAATAAATATAATTATGTAATATAATAAAAATAATTAAAAT-TT
*
3956822 ATATAAATAAATA-ATATTAATGTAATATAAATATATAAATATTTAAAATTT
1 ATATAAATAAATATA-ATT-ATGTAATAT-AATA-A-AAATAATTAAAATTT
3956873 ATATAATATAAAT
1 ATATAA-ATAAAT
3956886 TATTAAAATA
Statistics
Matches: 56, Mismatches: 1, Indels: 9
0.85 0.02 0.14
Matches are distributed among these distances:
47 5 0.09
48 11 0.20
49 9 0.16
50 4 0.07
51 9 0.16
52 18 0.32
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.40
Consensus pattern (47 bp):
ATATAAATAAATATAATTATGTAATATAATAAAAATAATTAAAATTT
Found at i:3956900 original size:32 final size:32
Alignment explanation
Indices: 3956844--3956917 Score: 98
Period size: 32 Copynumber: 2.3 Consensus size: 32
3956834 AATATTAATG
*
3956844 TAATATAAATATATAAATATTTAAAATTTATA
1 TAATATAAATATATAAATATTTAAAAATTATA
3956876 TAATATAAAT-TATTAAA-ATATTAAAAATTATA
1 TAATATAAATATA-TAAATAT-TTAAAAATTATA
3956908 TAAATATAAA
1 T-AATATAAA
3956918 ATAATTTAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 5
0.86 0.02 0.11
Matches are distributed among these distances:
31 4 0.11
32 26 0.68
33 8 0.21
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (32 bp):
TAATATAAATATATAAATATTTAAAAATTATA
Found at i:3956912 original size:18 final size:17
Alignment explanation
Indices: 3956853--3956918 Score: 59
Period size: 18 Copynumber: 3.9 Consensus size: 17
3956843 GTAATATAAA
*
3956853 TATATAAATATTTAAAAT
1 TATATAAATA-TAAAAAT
3956871 T-TATATAATAT--AAAT
1 TATATA-AATATAAAAAT
3956886 TAT-TAAAATATTAAAAAT
1 TATAT-AAATA-TAAAAAT
3956904 TATATAAATATAAAA
1 TATATAAATATAAAA
3956919 TAATTTAAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 15
0.73 0.00 0.27
Matches are distributed among these distances:
15 10 0.24
16 3 0.07
17 10 0.24
18 17 0.41
19 1 0.02
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
TATATAAATATAAAAAT
Found at i:3956912 original size:27 final size:27
Alignment explanation
Indices: 3956797--3956929 Score: 86
Period size: 27 Copynumber: 4.9 Consensus size: 27
3956787 TAATTATGTA
3956797 ATAT-AATA-AAAATAA-TTAAAATATT
1 ATATAAATATAAAATAATTTAAAA-ATT
** *
3956822 ATAT-AA-AT-AAATAATATT-AATGTA
1 ATATAAATATAAAATAAT-TTAAAAATT
*
3956846 ATATAAATATATAAAT-ATTTAAAATTT
1 ATATAAATATA-AAATAATTTAAAAATT
3956873 ATAT-AATATAAATTATTAAAATATTAAAAATT
1 ATATAAATATAAA--A-T--AAT-TTAAAAATT
3956905 ATATAAATATAAAATAATTTAAAAA
1 ATATAAATATAAAATAATTTAAAAA
3956930 CACATAACAA
Statistics
Matches: 85, Mismatches: 7, Indels: 30
0.70 0.06 0.25
Matches are distributed among these distances:
24 12 0.14
25 12 0.14
26 12 0.14
27 17 0.20
28 8 0.09
30 1 0.01
31 3 0.04
32 12 0.14
33 8 0.09
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.38
Consensus pattern (27 bp):
ATATAAATATAAAATAATTTAAAAATT
Found at i:3965159 original size:41 final size:41
Alignment explanation
Indices: 3965107--3965186 Score: 151
Period size: 41 Copynumber: 2.0 Consensus size: 41
3965097 TCAAAAGGGT
3965107 GTTATAAAATACTTTTATTAATTTATAAATTGAGTCAAAAG
1 GTTATAAAATACTTTTATTAATTTATAAATTGAGTCAAAAG
*
3965148 GTTATATAATACTTTTATTAATTTATAAATTGAGTCAAA
1 GTTATAAAATACTTTTATTAATTTATAAATTGAGTCAAA
3965187 TTATTAATGG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.42, C:0.05, G:0.09, T:0.44
Consensus pattern (41 bp):
GTTATAAAATACTTTTATTAATTTATAAATTGAGTCAAAAG
Found at i:3967101 original size:19 final size:20
Alignment explanation
Indices: 3967069--3967107 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
3967059 AATTAATTAT
*
3967069 TTTTAATTATTTTAGTTTTA
1 TTTTAATTAATTTAGTTTTA
*
3967089 TTTT-ATTAATTTATTTTTA
1 TTTTAATTAATTTAGTTTTA
3967108 ATATAAATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.72
Consensus pattern (20 bp):
TTTTAATTAATTTAGTTTTA
Found at i:3967131 original size:25 final size:26
Alignment explanation
Indices: 3967104--3967191 Score: 74
Period size: 31 Copynumber: 3.3 Consensus size: 26
3967094 TTAATTTATT
3967104 TTTAATATAAATATAATTTTAATATTTTTTA
1 TTTAATATAAATATAATTTTAATA-----TA
3967135 TTTAATATAAATATAATTTTTAAT-TA
1 TTTAATATAAATATAA-TTTTAATATA
* * *
3967161 TTTATTATATAT-TAA-TTTAATATC
1 TTTAATATAAATATAATTTTAATATA
3967185 TTTAATA
1 TTTAATA
3967192 ATTATTTTAC
Statistics
Matches: 51, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
23 6 0.12
24 7 0.14
25 3 0.06
26 12 0.24
31 16 0.31
32 7 0.14
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.57
Consensus pattern (26 bp):
TTTAATATAAATATAATTTTAATATA
Found at i:3967139 original size:31 final size:33
Alignment explanation
Indices: 3967089--3967168 Score: 114
Period size: 31 Copynumber: 2.5 Consensus size: 33
3967079 TTTAGTTTTA
3967089 TTTT-ATTAATTTATT-TTTAATATAAATATAA-
1 TTTTAATT-ATTTATTATTTAATATAAATATAAT
*
3967120 TTTTAA-TATTTTTTATTTAATATAAATATAAT
1 TTTTAATTATTTATTATTTAATATAAATATAAT
3967152 TTTTAATTATTTATTAT
1 TTTTAATTATTTATTAT
3967169 ATATTAATTT
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
30 6 0.14
31 21 0.49
32 7 0.16
33 9 0.21
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (33 bp):
TTTTAATTATTTATTATTTAATATAAATATAAT
Found at i:3968891 original size:16 final size:14
Alignment explanation
Indices: 3968859--3968899 Score: 55
Period size: 15 Copynumber: 2.8 Consensus size: 14
3968849 AAATATTTTA
3968859 TTTTATATATAATT
1 TTTTATATATAATT
*
3968873 TTTTATATATTAATA
1 TTTTATATA-TAATT
3968888 TTTTATAATATA
1 TTTTAT-ATATA
3968900 TAAATTTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
14 9 0.38
15 12 0.50
16 3 0.12
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (14 bp):
TTTTATATATAATT
Found at i:3968906 original size:16 final size:16
Alignment explanation
Indices: 3968862--3968914 Score: 54
Period size: 16 Copynumber: 3.2 Consensus size: 16
3968852 TATTTTATTT
*
3968862 TATATATAATTTT-TTA
1 TATATA-AATTTTATAA
3968878 TATATTAATATTTTATAA
1 TATA-TAA-ATTTTATAA
*
3968896 TATATAAATTTTAAAA
1 TATATAAATTTTATAA
3968912 TAT
1 TAT
3968915 TTATATATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
16 16 0.50
17 10 0.31
18 6 0.19
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
TATATAAATTTTATAA
Found at i:3971446 original size:14 final size:15
Alignment explanation
Indices: 3971427--3971459 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
3971417 AAACAAATGC
3971427 GAATATTAATT-TTT
1 GAATATTAATTATTT
*
3971441 GAATATTTATTATTT
1 GAATATTAATTATTT
3971456 GAAT
1 GAAT
3971460 TCATGTTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 10 0.59
15 7 0.41
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.55
Consensus pattern (15 bp):
GAATATTAATTATTT
Found at i:3971786 original size:18 final size:18
Alignment explanation
Indices: 3971765--3971827 Score: 67
Period size: 18 Copynumber: 3.4 Consensus size: 18
3971755 TAAATTTAAT
3971765 TTTTATTTGATTTTATCA
1 TTTTATTTGATTTTATCA
* *
3971783 TTTTATTT--TTTAATTTAA
1 TTTTATTTGATTT--TATCA
3971801 TTTTTATTTGATTTTATCA
1 -TTTTATTTGATTTTATCA
3971820 TTTTATTT
1 TTTTATTT
3971828 TTTAAAAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 10
0.72 0.08 0.20
Matches are distributed among these distances:
16 3 0.08
18 19 0.53
19 11 0.31
21 3 0.08
ACGTcount: A:0.22, C:0.03, G:0.03, T:0.71
Consensus pattern (18 bp):
TTTTATTTGATTTTATCA
Found at i:3971799 original size:37 final size:37
Alignment explanation
Indices: 3971752--3971832 Score: 153
Period size: 37 Copynumber: 2.2 Consensus size: 37
3971742 TTGACTTTGA
*
3971752 TTTTAAATTTAATTTTTATTTGATTTTATCATTTTAT
1 TTTTTAATTTAATTTTTATTTGATTTTATCATTTTAT
3971789 TTTTTAATTTAATTTTTATTTGATTTTATCATTTTAT
1 TTTTTAATTTAATTTTTATTTGATTTTATCATTTTAT
3971826 TTTTTAA
1 TTTTTAA
3971833 AAAAAATTGA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 43 1.00
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.69
Consensus pattern (37 bp):
TTTTTAATTTAATTTTTATTTGATTTTATCATTTTAT
Found at i:3971809 original size:24 final size:24
Alignment explanation
Indices: 3971759--3971829 Score: 63
Period size: 24 Copynumber: 2.9 Consensus size: 24
3971749 TGATTTTAAA
* *
3971759 TTTAATTTTTATTTGATTTTATCAT
1 TTTATTTTTTATTTAATTTT-TCAT
3971784 TTTATTTTTTAATTTAATTTTT-AT
1 TTTATTTTTT-ATTTAATTTTTCAT
* * *
3971808 TTGATTTTATCATTTTATTTTT
1 TTTATTTT-TTATTTAATTTTT
3971830 TAAAAAAAAT
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
24 19 0.49
25 11 0.28
26 9 0.23
ACGTcount: A:0.23, C:0.03, G:0.03, T:0.72
Consensus pattern (24 bp):
TTTATTTTTTATTTAATTTTTCAT
Found at i:3971873 original size:17 final size:17
Alignment explanation
Indices: 3971851--3971897 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
3971841 GACGAGATAA
*
3971851 ATTAAATTATTTAACTG
1 ATTAAATTATTTAACAG
3971868 ATTAAA-TATTTAACAG
1 ATTAAATTATTTAACAG
3971884 A-TAATATTATTTAA
1 ATTAA-ATTATTTAA
3971898 ATTAAATTCA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
15 3 0.11
16 11 0.41
17 13 0.48
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (17 bp):
ATTAAATTATTTAACAG
Found at i:3971891 original size:14 final size:16
Alignment explanation
Indices: 3971851--3971885 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
3971841 GACGAGATAA
*
3971851 ATTAAATTATTTAACTG
1 ATTAAA-TATTTAACAG
3971868 ATTAAATATTTAACAG
1 ATTAAATATTTAACAG
3971884 AT
1 AT
3971886 AATATTATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 11 0.65
17 6 0.35
ACGTcount: A:0.46, C:0.06, G:0.06, T:0.43
Consensus pattern (16 bp):
ATTAAATATTTAACAG
Found at i:3971904 original size:30 final size:27
Alignment explanation
Indices: 3971872--3971931 Score: 70
Period size: 25 Copynumber: 2.2 Consensus size: 27
3971862 TAACTGATTA
*
3971872 AATATTTAACAGATAATATTATTTAAATT
1 AATATTT--CAGATAATAATATTTAAATT
3971901 AA-A-TTCAGATAATAATATTTAAATTT
1 AATATTTCAGATAATAATATTTAAA-TT
3971927 AATAT
1 AATAT
3971932 AAATAATAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
25 17 0.63
26 4 0.15
27 3 0.11
28 1 0.04
29 2 0.07
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.43
Consensus pattern (27 bp):
AATATTTCAGATAATAATATTTAAATT
Found at i:3971937 original size:25 final size:25
Alignment explanation
Indices: 3971884--3971940 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
3971874 TATTTAACAG
* *
3971884 ATAATATTATTTAAATTAAATTCAG
1 ATAATAATATTTAAATTAAATTCAA
*
3971909 ATAATAATATTTAAATTTAATAT-AA
1 ATAATAATATTTAAATTAAAT-TCAA
3971934 ATAATAA
1 ATAATAA
3971941 ACAAATTTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 27 0.96
26 1 0.04
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (25 bp):
ATAATAATATTTAAATTAAATTCAA
Found at i:3973143 original size:3 final size:3
Alignment explanation
Indices: 3973135--3973165 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
3973125 GGGTAGTCAG
3973135 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
3973166 CCGACCTTCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:3976558 original size:22 final size:22
Alignment explanation
Indices: 3976530--3976601 Score: 65
Period size: 22 Copynumber: 3.2 Consensus size: 22
3976520 ATATAATTTT
3976530 AAATATAAAATAAAAATAAATA
1 AAATATAAAATAAAAATAAATA
* *
3976552 AAATATAAAA-ATATAATGAATA
1 AAATATAAAATA-AAAATAAATA
** *
3976574 CGATATAAATATATAAATATAATA
1 AAATATAAA-ATAAAAATA-AATA
3976598 AAAT
1 AAAT
3976602 TATTAACGTA
Statistics
Matches: 37, Mismatches: 9, Indels: 6
0.71 0.17 0.12
Matches are distributed among these distances:
21 1 0.03
22 25 0.68
23 4 0.11
24 7 0.19
ACGTcount: A:0.68, C:0.01, G:0.03, T:0.28
Consensus pattern (22 bp):
AAATATAAAATAAAAATAAATA
Found at i:3976573 original size:17 final size:17
Alignment explanation
Indices: 3976529--3976564 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
3976519 TATATAATTT
3976529 TAAATATAAA-ATAAAAA
1 TAAATA-AAATATAAAAA
3976546 TAAATAAAATATAAAAA
1 TAAATAAAATATAAAAA
3976563 TA
1 TA
3976565 TAATGAATAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 3 0.17
17 15 0.83
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (17 bp):
TAAATAAAATATAAAAA
Found at i:3976855 original size:2 final size:2
Alignment explanation
Indices: 3976848--3976876 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
3976838 GTGTTGTCGG
3976848 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
3976877 TTGAATAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3983126 original size:20 final size:23
Alignment explanation
Indices: 3983084--3983134 Score: 72
Period size: 20 Copynumber: 2.3 Consensus size: 23
3983074 AATATGTTTA
3983084 TATATTTATATATTTTATTATAT
1 TATATTTATATATTTTATTATAT
3983107 TATATTT-TA-ATTTT-TTATAT
1 TATATTTATATATTTTATTATAT
*
3983127 TAAATTTA
1 TATATTTA
3983135 CGTAATATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
20 12 0.46
21 5 0.19
22 2 0.08
23 7 0.27
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (23 bp):
TATATTTATATATTTTATTATAT
Found at i:3984744 original size:28 final size:32
Alignment explanation
Indices: 3984699--3984769 Score: 91
Period size: 28 Copynumber: 2.4 Consensus size: 32
3984689 AAATTTTATT
3984699 TATATATT-T-TTTATTTTTA-ATATA-TAAA
1 TATATATTATATTTATTTTTATATATATTAAA
*
3984727 -ATA-ATTATATTTATTTTTATATTTATTAAA
1 TATATATTATATTTATTTTTATATATATTAAA
3984757 TATATATTATATT
1 TATATATTATATT
3984770 ACGTAAAATA
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
26 3 0.08
27 4 0.11
28 10 0.28
29 4 0.11
30 4 0.11
31 3 0.08
32 8 0.22
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (32 bp):
TATATATTATATTTATTTTTATATATATTAAA
Found at i:3986017 original size:14 final size:14
Alignment explanation
Indices: 3985983--3986020 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
3985973 TATTATTATT
3985983 TATATAAAT-TTAA
1 TATATAAATATTAA
3985996 T-TATAAATATTAA
1 TATATAAATATTAA
*
3986009 TATAAAAATATT
1 TATATAAATATT
3986021 TTAATTTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
12 7 0.32
13 6 0.27
14 9 0.41
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
TATATAAATATTAA
Found at i:3986043 original size:29 final size:30
Alignment explanation
Indices: 3985991--3986048 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 30
3985981 TTTATATAAA
3985991 TTTAATTATAAATATTAATATAAA-AATAT
1 TTTAATTATAAATATTAATATAAATAATAT
* * * *
3986020 TTTAATTTTTAATATTATTTTAAATAATA
1 TTTAATTATAAATATTAATATAAATAATA
3986049 ATATAAAATT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 20 0.83
30 4 0.17
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (30 bp):
TTTAATTATAAATATTAATATAAATAATAT
Found at i:3986510 original size:22 final size:21
Alignment explanation
Indices: 3986471--3986512 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
3986461 GTAAATTATA
3986471 ATAAATTTTAAAAAATAAAAT
1 ATAAATTTTAAAAAATAAAAT
* *
3986492 ATAAATTATTAATATATAAAA
1 ATAAATT-TTAAAAAATAAAA
3986513 AATATTTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (21 bp):
ATAAATTTTAAAAAATAAAAT
Found at i:3997221 original size:2 final size:2
Alignment explanation
Indices: 3997178--3997202 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
3997168 CAAAAACCAC
3997178 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
3997203 ATAGCACAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3997228 original size:28 final size:27
Alignment explanation
Indices: 3997188--3997243 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 27
3997178 ATATATATAT
*
3997188 ATATATATATATATAATAGCACAAGAGA
1 ATATATATATATAT-AGAGCACAAGAGA
3997216 ATATATATATATATAGAGCACAAGAGA
1 ATATATATATATATAGAGCACAAGAGA
3997243 A
1 A
3997244 CCCAGTTTTG
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
27 13 0.48
28 14 0.52
ACGTcount: A:0.54, C:0.07, G:0.12, T:0.27
Consensus pattern (27 bp):
ATATATATATATATAGAGCACAAGAGA
Found at i:4003452 original size:2 final size:2
Alignment explanation
Indices: 4003445--4003478 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
4003435 TGCTTCTCAC
4003445 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4003479 TCAACTGTCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4005712 original size:29 final size:29
Alignment explanation
Indices: 4005643--4005726 Score: 84
Period size: 29 Copynumber: 2.9 Consensus size: 29
4005633 CTGAGTTATG
4005643 AATAA-AAAAATTATAAA-TATTTTTTAAA
1 AATAATAAAAATTATAAATTA-TTTTTAAA
* ***
4005671 ATTAATTTTAATT-TAAATTATTATTTAAA
1 AATAATAAAAATTATAAATTATT-TTTAAA
*
4005700 AATAATAAAAATTAAAAATTATTTTTA
1 AATAATAAAAATTATAAATTATTTTTA
4005727 TATTAATATT
Statistics
Matches: 43, Mismatches: 9, Indels: 7
0.73 0.15 0.12
Matches are distributed among these distances:
28 10 0.23
29 25 0.58
30 8 0.19
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (29 bp):
AATAATAAAAATTATAAATTATTTTTAAA
Found at i:4005745 original size:22 final size:21
Alignment explanation
Indices: 4005719--4005780 Score: 74
Period size: 20 Copynumber: 3.0 Consensus size: 21
4005709 AATTAAAAAT
4005719 TATTTTTATATTAATATTAATA
1 TATTTTTATATTAAT-TTAATA
*
4005741 TATTTTTAT-TAAATTTAATA
1 TATTTTTATATTAATTTAATA
* *
4005761 TATATTTAAATT-ATTTAATA
1 TATTTTTATATTAATTTAATA
4005781 ATAATTTAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
20 21 0.60
21 5 0.14
22 9 0.26
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (21 bp):
TATTTTTATATTAATTTAATA
Found at i:4005776 original size:20 final size:20
Alignment explanation
Indices: 4005753--4005794 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
4005743 TTTTTATTAA
4005753 ATTTAAT-ATATATTTAAATT
1 ATTTAATAATA-ATTTAAATT
4005773 ATTTAATAATAATTTAAATT
1 ATTTAATAATAATTTAAATT
4005793 AT
1 AT
4005795 AAAAAAATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 18 0.86
21 3 0.14
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (20 bp):
ATTTAATAATAATTTAAATT
Found at i:4005807 original size:16 final size:17
Alignment explanation
Indices: 4005786--4005825 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
4005776 TAATAATAAT
4005786 TTAAATTA-TAAAAAAA
1 TTAAATTACTAAAAAAA
* *
4005802 TTAAATTACTTAACAAA
1 TTAAATTACTAAAAAAA
4005819 TTAAATT
1 TTAAATT
4005826 TATGATATGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 8 0.38
17 13 0.62
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (17 bp):
TTAAATTACTAAAAAAA
Found at i:4006227 original size:10 final size:8
Alignment explanation
Indices: 4006200--4006234 Score: 54
Period size: 8 Copynumber: 4.4 Consensus size: 8
4006190 AAATTTATCT
4006200 TTTTTATA
1 TTTTTATA
4006208 TTTTTATA
1 TTTTTATA
4006216 TTTTTA-A
1 TTTTTATA
4006223 TTATTTATA
1 TT-TTTATA
4006232 TTT
1 TTT
4006235 AATATATAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
7 3 0.12
8 19 0.76
9 3 0.12
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (8 bp):
TTTTTATA
Found at i:4008813 original size:465 final size:465
Alignment explanation
Indices: 4007939--4008873 Score: 1566
Period size: 465 Copynumber: 2.0 Consensus size: 465
4007929 ACATGTTAGT
* *
4007939 AATAAACATAAATCATAATCTATGCATTTATACATAGCTTACTATTTATGAATATAGATCATGAG
1 AATAAACATAAATCACAATCTATGCATTTATACATAGCTTACTATTTATGAACATAGATCATGAG
* * * *
4008004 CAGGATTTGGTAACCCTTCATGACTACCAAAATATTGAAAGGTCAAATTAATCTCTTTGAAACCT
66 CAGGATTTAGTAACCCTTCATAACTACCAAAATATTAAAAGGCCAAATTAATCTCTTTGAAACCT
* * * *
4008069 TTCAGCGACTAACTTATTAGTGTAATTCAATTATTTTACTAAATATCTTGGAATGAGGGTAAACA
131 TTCAGCAACTAACTTATTAGTGCAATTCAATCATTTTACTAAATATCTTGAAATGAGGGTAAACA
4008134 TGGTCTAGCATTTACTCATGTTTCAATTTATATTAGTTCTTATAATTATGATTAATATAAATTTT
196 TGGTCTAGCATTTACTCATGTTTCAATTTATATTAGTTCTTATAATTATGATTAATATAAATTTT
* * *
4008199 AAAAAAGTAATTTTTTTTAAATTCATCTTATTTTAACCAAAAACTTTAATTCAATTAACCATAGC
261 AAAAAAGTAATTTTTTTAAAACTCATCTTATTTTAACCAAAAACTTTAATTCAATTAACCACAGC
* * * *
4008264 CAAGAACAGTTGGGATATATTTTTAATATCATTAGGAGTGGTGAATTCCCTTTAGATCTTTTATT
326 CAAGAACAGTTGGGATATATGTTCAATATCATTAGGAATGGTGAATTCCCTTTAGATATTTTATT
* * *
4008329 TATCTTTGTATGCTTCATGCCATACCCAAAATCACTCTATTATAGGTATCTTTAGTCATGGATCG
391 CATCTTTGTATGCTTCATGCCATACCCAAAATCACTCTATTATAGGCATCTTTAGTCATGGACCG
4008394 ATTCAAATGA
456 ATTCAAATGA
4008404 AATAAACATAAATCACAATCTATGCATTTATACATAGCTTACTATTTATGAACATAGATCATGAG
1 AATAAACATAAATCACAATCTATGCATTTATACATAGCTTACTATTTATGAACATAGATCATGAG
* * *
4008469 CAGGATTTAGTAACCCTTCATAACTATCAATATATTAAAAGGCCAAATTGATCTCTTTGAAACCT
66 CAGGATTTAGTAACCCTTCATAACTACCAAAATATTAAAAGGCCAAATTAATCTCTTTGAAACCT
*
4008534 TTCAGCAACTAACTTATTAGTGCAATTCAATCATTTTACTAAATATCTTGAAATGAGGGTGAACA
131 TTCAGCAACTAACTTATTAGTGCAATTCAATCATTTTACTAAATATCTTGAAATGAGGGTAAACA
*
4008599 TGGTCTAGTATTTACTCATGTTTCAATTTATATTAGTTCTTATAATTATGATTAATATAAATTTT
196 TGGTCTAGCATTTACTCATGTTTCAATTTATATTAGTTCTTATAATTATGATTAATATAAA-TTT
* * *
4008664 TAAAAAA-TAATTTTTTTAAAACTCATCTTATTTTGACCAAAAACTTTAATTCATTTAATCACAG
260 TAAAAAAGTAATTTTTTTAAAACTCATCTTATTTTAACCAAAAACTTTAATTCAATTAACCACAG
4008728 CCAAGAACAGTTGGGATATATGTTCAATATCATTAGGAATGGTGAATTCCCTTTAGATATTTTAT
325 CCAAGAACAGTTGGGATATATGTTCAATATCATTAGGAATGGTGAATTCCCTTTAGATATTTTAT
* * * *
4008793 TCATCTTTGTATGTTTCATGCCATACGCAAAATTACTCTATTATAGGCATCTTTTGTCATGGACC
390 TCATCTTTGTATGCTTCATGCCATACCCAAAATCACTCTATTATAGGCATCTTTAGTCATGGACC
4008858 GATTCAAATGA
455 GATTCAAATGA
4008869 AATAA
1 AATAA
4008874 GAGTATGACA
Statistics
Matches: 437, Mismatches: 32, Indels: 2
0.93 0.07 0.00
Matches are distributed among these distances:
465 427 0.98
466 10 0.02
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.38
Consensus pattern (465 bp):
AATAAACATAAATCACAATCTATGCATTTATACATAGCTTACTATTTATGAACATAGATCATGAG
CAGGATTTAGTAACCCTTCATAACTACCAAAATATTAAAAGGCCAAATTAATCTCTTTGAAACCT
TTCAGCAACTAACTTATTAGTGCAATTCAATCATTTTACTAAATATCTTGAAATGAGGGTAAACA
TGGTCTAGCATTTACTCATGTTTCAATTTATATTAGTTCTTATAATTATGATTAATATAAATTTT
AAAAAAGTAATTTTTTTAAAACTCATCTTATTTTAACCAAAAACTTTAATTCAATTAACCACAGC
CAAGAACAGTTGGGATATATGTTCAATATCATTAGGAATGGTGAATTCCCTTTAGATATTTTATT
CATCTTTGTATGCTTCATGCCATACCCAAAATCACTCTATTATAGGCATCTTTAGTCATGGACCG
ATTCAAATGA
Found at i:4009475 original size:18 final size:17
Alignment explanation
Indices: 4009441--4009495 Score: 64
Period size: 16 Copynumber: 3.4 Consensus size: 17
4009431 TGTTTAAAAT
4009441 ATTTTATATTTATATAA
1 ATTTTATATTTATATAA
4009458 ATTTTAATATATTA-AT-A
1 ATTTT-ATAT-TTATATAA
4009475 A-TTTATA-TTATATAA
1 ATTTTATATTTATATAA
4009490 ATTTTA
1 ATTTTA
4009496 AAATATATAT
Statistics
Matches: 33, Mismatches: 0, Indels: 11
0.75 0.00 0.25
Matches are distributed among these distances:
13 3 0.09
14 2 0.06
15 5 0.15
16 7 0.21
17 7 0.21
18 6 0.18
19 3 0.09
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
ATTTTATATTTATATAA
Found at i:4009489 original size:32 final size:33
Alignment explanation
Indices: 4009438--4009501 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
4009428 TTGTGTTTAA
* *
4009438 AATATTTTATATTTATATAAATTTTAATATATT
1 AATAATTTATATTTATATAAATTTTAAAATATT
4009471 AATAATTTATA-TTATATAAATTTTAAAATAT
1 AATAATTTATATTTATATAAATTTTAAAATAT
4009502 ATATTCATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 19 0.66
33 10 0.34
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (33 bp):
AATAATTTATATTTATATAAATTTTAAAATATT
Found at i:4009501 original size:14 final size:14
Alignment explanation
Indices: 4009451--4009502 Score: 50
Period size: 14 Copynumber: 3.4 Consensus size: 14
4009441 ATTTTATATT
4009451 TATATAAATTTTAA
1 TATATAAATTTTAA
*
4009465 TATATTAATAATTTATAT
1 TATA-T-A-AATTT-TAA
4009483 TATATAAATTTTAA
1 TATATAAATTTTAA
*
4009497 AATATA
1 TATATA
4009503 TATTCATTTC
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
14 11 0.35
15 6 0.19
16 2 0.06
17 6 0.19
18 6 0.19
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
TATATAAATTTTAA
Found at i:4009502 original size:16 final size:16
Alignment explanation
Indices: 4009451--4009504 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 16
4009441 ATTTTATATT
*
4009451 TATATAAATTTTAATA
1 TATATAAATTTTAAAA
* * *
4009467 TAT-TAATAATTTATAT
1 TATATAA-ATTTTAAAA
4009483 TATATAAATTTTAAAA
1 TATATAAATTTTAAAA
4009499 TATATA
1 TATATA
4009505 TTCATTTCGT
Statistics
Matches: 29, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
15 3 0.10
16 23 0.79
17 3 0.10
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
TATATAAATTTTAAAA
Found at i:4010012 original size:12 final size:12
Alignment explanation
Indices: 4009997--4010053 Score: 57
Period size: 12 Copynumber: 4.8 Consensus size: 12
4009987 TTAGTTATTA
4009997 TTTTTCTTTTTC
1 TTTTTCTTTTTC
4010009 TTTTT-TTATTTC
1 TTTTTCTT-TTTC
* *
4010021 TTTTCCTCTTTC
1 TTTTTCTTTTTC
4010033 TTTTT-TTCTTT-
1 TTTTTCTT-TTTC
4010044 TTTTTCTTTT
1 TTTTTCTTTT
4010054 GCAGGTCCAA
Statistics
Matches: 37, Mismatches: 4, Indels: 9
0.74 0.08 0.18
Matches are distributed among these distances:
11 10 0.27
12 26 0.70
13 1 0.03
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.82
Consensus pattern (12 bp):
TTTTTCTTTTTC
Found at i:4010017 original size:20 final size:21
Alignment explanation
Indices: 4009994--4010045 Score: 58
Period size: 18 Copynumber: 2.7 Consensus size: 21
4009984 TTTTTAGTTA
4009994 TTATTTTTCTTTTTCT-TTT-
1 TTATTTTTCTTTTTCTCTTTC
* *
4010013 TT-TATTTCTTTTCCTCTTTC
1 TTATTTTTCTTTTTCTCTTTC
4010033 TT-TTTTTCTTTTT
1 TTATTTTTCTTTTT
4010046 TTTCTTTTGC
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
18 11 0.41
19 5 0.19
20 11 0.41
ACGTcount: A:0.04, C:0.15, G:0.00, T:0.81
Consensus pattern (21 bp):
TTATTTTTCTTTTTCTCTTTC
Found at i:4010024 original size:24 final size:23
Alignment explanation
Indices: 4009991--4010053 Score: 81
Period size: 24 Copynumber: 2.7 Consensus size: 23
4009981 TTTTTTTTAG
*
4009991 TTATTATTTTTCTTTTTCTTTTT
1 TTATTTTTTTTCTTTTTCTTTTT
* *
4010014 TTATTTCTTTTCCTCTTTCTTTTT
1 TTATTT-TTTTTCTTTTTCTTTTT
*
4010038 TTCTTTTTTTTCTTTT
1 TTATTTTTTTTCTTTT
4010054 GCAGGTCCAA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
23 13 0.39
24 20 0.61
ACGTcount: A:0.05, C:0.14, G:0.00, T:0.81
Consensus pattern (23 bp):
TTATTTTTTTTCTTTTTCTTTTT
Found at i:4010040 original size:8 final size:8
Alignment explanation
Indices: 4010003--4010053 Score: 50
Period size: 8 Copynumber: 6.2 Consensus size: 8
4009993 ATTATTTTTC
4010003 TTTTTCTT
1 TTTTTCTT
*
4010011 TTTTTATT
1 TTTTTCTT
*
4010019 TCTTTTC-C
1 T-TTTTCTT
*
4010027 TCTTTCTT
1 TTTTTCTT
4010035 TTTTTCTTT
1 TTTTTC-TT
4010044 TTTTTCTT
1 TTTTTCTT
4010052 TT
1 TT
4010054 GCAGGTCCAA
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
7 4 0.12
8 18 0.53
9 12 0.35
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.82
Consensus pattern (8 bp):
TTTTTCTT
Found at i:4015479 original size:20 final size:20
Alignment explanation
Indices: 4015456--4015519 Score: 68
Period size: 18 Copynumber: 3.5 Consensus size: 20
4015446 TTTTTAAATA
4015456 ATATATTATTAAATTATTTT
1 ATATATTATTAAATTATTTT
*
4015476 ATATATT-TTAAAATA-TTT
1 ATATATTATTAAATTATTTT
4015494 ATATATGTA-T--ATTATTTT
1 ATATAT-TATTAAATTATTTT
4015512 -TATATTAT
1 ATATATTAT
4015520 ATATTATATA
Statistics
Matches: 38, Mismatches: 2, Indels: 11
0.75 0.04 0.22
Matches are distributed among these distances:
16 2 0.05
17 8 0.21
18 12 0.32
19 9 0.24
20 7 0.18
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (20 bp):
ATATATTATTAAATTATTTT
Found at i:4015515 original size:17 final size:16
Alignment explanation
Indices: 4015457--4015558 Score: 59
Period size: 17 Copynumber: 6.2 Consensus size: 16
4015447 TTTTAAATAA
*
4015457 TATATTATTAAATTATTT
1 TATA-TATTATATTA-TT
* *
4015475 TATATATTTTAAAATATT
1 TATATA--TTATATTATT
4015493 TATATATGTATATTATT
1 TATATAT-TATATTATT
*
4015510 TTTATATTATA-TA-T
1 TATATATTATATTATT
4015524 TATATATT-T-TTATT
1 TATATATTATATTATT
* * *
4015538 TAATTTTTTATAATATT
1 T-ATATATTATATTATT
4015555 TATA
1 TATA
4015559 GCATGTTAAT
Statistics
Matches: 67, Mismatches: 9, Indels: 18
0.71 0.10 0.19
Matches are distributed among these distances:
13 3 0.04
14 10 0.15
15 7 0.10
16 8 0.12
17 20 0.30
18 12 0.18
19 7 0.10
ACGTcount: A:0.37, C:0.00, G:0.01, T:0.62
Consensus pattern (16 bp):
TATATATTATATTATT
Found at i:4015516 original size:35 final size:34
Alignment explanation
Indices: 4015427--4015517 Score: 103
Period size: 35 Copynumber: 2.6 Consensus size: 34
4015417 CCGTACATTA
* *
4015427 TATTAAAAATATTTTTATATTTTTAAATAATATAT
1 TATT-AAATTATTTTTATATTTTAAAATAATATAT
*
4015462 TATTAAATTATTTTATATATTTTAAAAT-ATTTAT
1 TATTAAATTATTTT-TATATTTTAAAATAATATAT
*
4015496 ATATGTATATTATTTTTATATT
1 -TAT-TAAATTATTTTTATATT
4015518 ATATATTATA
Statistics
Matches: 49, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
34 14 0.29
35 25 0.51
36 10 0.20
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (34 bp):
TATTAAATTATTTTTATATTTTAAAATAATATAT
Found at i:4015524 original size:18 final size:18
Alignment explanation
Indices: 4015457--4015526 Score: 63
Period size: 17 Copynumber: 3.8 Consensus size: 18
4015447 TTTTAAATAA
4015457 TATATTATTAAATTATTTT
1 TATATTA-TAAATTATTTT
* * *
4015476 ATATATTTTAAAATATTTA
1 -TATATTATAAATTATTTT
4015495 TATATGTAT--ATTATTTT
1 TATAT-TATAAATTATTTT
*
4015512 TATATTATATATTAT
1 TATATTATAAATTAT
4015527 ATATTTTTAT
Statistics
Matches: 41, Mismatches: 6, Indels: 8
0.75 0.11 0.15
Matches are distributed among these distances:
16 3 0.07
17 11 0.27
18 10 0.24
19 11 0.27
20 6 0.15
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.60
Consensus pattern (18 bp):
TATATTATAAATTATTTT
Found at i:4015549 original size:22 final size:22
Alignment explanation
Indices: 4015435--4015536 Score: 82
Period size: 23 Copynumber: 4.5 Consensus size: 22
4015425 TATATTAAAA
* * *
4015435 ATATTTTTATATTTTTAAATAAT
1 ATATTTTTATA-TTATATATTAT
* *
4015458 ATATTATTAAATTAT-T-TTAT
1 ATATTTTTATATTATATATTAT
*
4015478 ATATTTTAAAATATTTATATATGTAT
1 ATATTTT--TATA-TTATATAT-TAT
4015504 ATTATTTTTATATTATATATTAT
1 A-TATTTTTATATTATATATTAT
4015527 ATATTTTTAT
1 ATATTTTTAT
4015537 TTAATTTTTT
Statistics
Matches: 63, Mismatches: 9, Indels: 15
0.72 0.10 0.17
Matches are distributed among these distances:
20 9 0.14
22 14 0.22
23 17 0.27
24 9 0.14
25 4 0.06
26 4 0.06
27 6 0.10
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.61
Consensus pattern (22 bp):
ATATTTTTATATTATATATTAT
Found at i:4015793 original size:17 final size:18
Alignment explanation
Indices: 4015771--4015805 Score: 54
Period size: 17 Copynumber: 1.9 Consensus size: 18
4015761 CATAGATTTG
4015771 ATTTAATT-TTATATTAA
1 ATTTAATTATTATATTAA
4015788 ATTTAATTAATTATATTA
1 ATTTAATT-ATTATATTA
4015806 TTTTATTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
19 8 0.50
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
ATTTAATTATTATATTAA
Found at i:4015859 original size:17 final size:18
Alignment explanation
Indices: 4015826--4015879 Score: 65
Period size: 17 Copynumber: 3.0 Consensus size: 18
4015816 CGATTTGCTT
*
4015826 ATTTAATTTTATTTAATA
1 ATTTAATATTATTTAATA
4015844 ATTTAATATT-TTTAATA
1 ATTTAATATTATTTAATA
* *
4015861 TTTTATTATTATTATAATA
1 ATTTAATATTATT-TAATA
4015880 TCTAATTATA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
17 15 0.48
18 11 0.35
19 5 0.16
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (18 bp):
ATTTAATATTATTTAATA
Found at i:4024210 original size:15 final size:16
Alignment explanation
Indices: 4024178--4024219 Score: 68
Period size: 15 Copynumber: 2.6 Consensus size: 16
4024168 TTTATAAGTT
4024178 AATATTTTAAATTTAAA
1 AATA-TTTAAATTTAAA
4024195 AATATTTAAA-TTAAA
1 AATATTTAAATTTAAA
4024210 AATATTTAAA
1 AATATTTAAA
4024220 CTCAAATTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
15 15 0.60
16 6 0.24
17 4 0.16
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
AATATTTAAATTTAAA
Found at i:4024699 original size:16 final size:15
Alignment explanation
Indices: 4024658--4024709 Score: 59
Period size: 15 Copynumber: 3.4 Consensus size: 15
4024648 AATTTTAATT
*
4024658 TTTAAATAATTTAAA
1 TTTAAAAAATTTAAA
*
4024673 CTTAAAAAATTTAAA
1 TTTAAAAAATTTAAA
*
4024688 TTTGATAAAATTTAAA
1 TTT-AAAAAATTTAAA
*
4024704 TATAAA
1 TTTAAA
4024710 TTAATCTGAT
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
15 17 0.57
16 13 0.43
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (15 bp):
TTTAAAAAATTTAAA
Found at i:4025440 original size:16 final size:17
Alignment explanation
Indices: 4025407--4025441 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
4025397 TAATATTTTA
4025407 TTATATATTTTTAATATT
1 TTATATATTTTT-ATATT
4025425 TTATATATTTTT-TATT
1 TTATATATTTTTATATT
4025441 T
1 T
4025442 ATTTAATATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.29
18 12 0.71
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
TTATATATTTTTATATT
Found at i:4025445 original size:20 final size:20
Alignment explanation
Indices: 4025397--4025438 Score: 68
Period size: 21 Copynumber: 2.1 Consensus size: 20
4025387 ACCTATTTAA
4025397 TAATATTTTATTATATATTTT
1 TAATATTTTA-TATATATTTT
4025418 TAATATTTTATATAT-TTTT
1 TAATATTTTATATATATTTT
4025437 TA
1 TA
4025439 TTTATTTAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 6 0.29
20 5 0.24
21 10 0.48
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (20 bp):
TAATATTTTATATATATTTT
Found at i:4025450 original size:20 final size:20
Alignment explanation
Indices: 4025397--4025450 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 20
4025387 ACCTATTTAA
*
4025397 TAATATTTTATTATATATTTT
1 TAATA-TTTAATATATATTTT
*
4025418 TAATATTTTATATAT-TTTT
1 TAATATTTAATATATATTTT
*
4025437 TATTTATTTAATAT
1 TA-ATATTTAATAT
4025451 TAAATATTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
19 6 0.21
20 17 0.61
21 5 0.18
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (20 bp):
TAATATTTAATATATATTTT
Found at i:4027520 original size:15 final size:15
Alignment explanation
Indices: 4027483--4027521 Score: 60
Period size: 16 Copynumber: 2.5 Consensus size: 15
4027473 TTATATGTTA
*
4027483 AAATTAAAATTTTTT
1 AAATTAAAATTATTT
4027498 AAATTTAAAATTATTT
1 AAA-TTAAAATTATTT
4027514 AAATTAAA
1 AAATTAAA
4027522 TTTAAAATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 8 0.36
16 14 0.64
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
AAATTAAAATTATTT
Found at i:4027789 original size:17 final size:19
Alignment explanation
Indices: 4027767--4027805 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 19
4027757 TAAAAAATCT
*
4027767 TTTATTTT-TGT-TTATAA
1 TTTATTTTGTGTATTAAAA
4027784 TTTATTTTGTGTATTAAAA
1 TTTATTTTGTGTATTAAAA
4027803 TTT
1 TTT
4027806 TTAAATAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 8 0.42
18 3 0.16
19 8 0.42
ACGTcount: A:0.26, C:0.00, G:0.08, T:0.67
Consensus pattern (19 bp):
TTTATTTTGTGTATTAAAA
Found at i:4028095 original size:15 final size:16
Alignment explanation
Indices: 4028063--4028103 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
4028053 CTAAATATTT
4028063 AATATAAAAAAAATTA
1 AATATAAAAAAAATTA
* *
4028079 AATATCAAATAAA-TA
1 AATATAAAAAAAATTA
4028094 AATATAAAAA
1 AATATAAAAA
4028104 TATTTTAAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
15 10 0.48
16 11 0.52
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.24
Consensus pattern (16 bp):
AATATAAAAAAAATTA
Found at i:4029334 original size:20 final size:21
Alignment explanation
Indices: 4029290--4029335 Score: 60
Period size: 20 Copynumber: 2.2 Consensus size: 21
4029280 ATTTTTATAT
4029290 TATAATTATATTTAAAATATTA
1 TATAATTATA-TTAAAATATTA
4029312 TATAATTATA-TAAAAT-TTAA
1 TATAATTATATTAAAATATT-A
4029332 TATA
1 TATA
4029336 TTAATAATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 2 0.09
20 11 0.48
22 10 0.43
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (21 bp):
TATAATTATATTAAAATATTA
Found at i:4031953 original size:37 final size:37
Alignment explanation
Indices: 4031891--4031962 Score: 99
Period size: 37 Copynumber: 1.9 Consensus size: 37
4031881 TTCGTTAATG
* * * *
4031891 TTCTCGACTTATATAGATATTCACCTGAATTCCTTGT
1 TTCTCGACTTATACAGACATACACCTAAATTCCTTGT
*
4031928 TTCTCGACTTATACATACATACACCTAAATTCCTT
1 TTCTCGACTTATACAGACATACACCTAAATTCCTT
4031963 ATTTGGGTGC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 30 1.00
ACGTcount: A:0.28, C:0.25, G:0.07, T:0.40
Consensus pattern (37 bp):
TTCTCGACTTATACAGACATACACCTAAATTCCTTGT
Found at i:4038320 original size:71 final size:71
Alignment explanation
Indices: 4038230--4038367 Score: 222
Period size: 71 Copynumber: 1.9 Consensus size: 71
4038220 ATTTAAATAC
*
4038230 ATAAAAAAACTTAAAATAAAAAATTAAATATACTTGTTTTAGATATATACTCATATCTAATACTT
1 ATAAAAAAACTTAAAATAAAAAATTAAATATACTTATTTTAGATATATACTCATATCTAATACTT
4038295 AATTCT
66 AATTCT
* * * * *
4038301 ATAAAAAAACTTAAAATAAAAAGTTAAATATATTTATTTTAGATCTATTCTTATATCTAATACTT
1 ATAAAAAAACTTAAAATAAAAAATTAAATATACTTATTTTAGATATATACTCATATCTAATACTT
4038366 AA
66 AA
4038368 CTTTTCAAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
71 61 1.00
ACGTcount: A:0.49, C:0.09, G:0.03, T:0.39
Consensus pattern (71 bp):
ATAAAAAAACTTAAAATAAAAAATTAAATATACTTATTTTAGATATATACTCATATCTAATACTT
AATTCT
Found at i:4043146 original size:35 final size:31
Alignment explanation
Indices: 4043098--4043176 Score: 92
Period size: 33 Copynumber: 2.5 Consensus size: 31
4043088 TATAATATTA
4043098 TATAATATAAATATT--TAT-TTAAAAATAT
1 TATAATATAAATATTAATATATTAAAAATAT
*
4043126 TATAATATAAATTATTAATATATTAAAATTTAT
1 TATAATATAAA-TATTAATATATTAAAA-ATAT
*
4043159 TTTAATATAAAATATTAA
1 TATAATAT-AAATATTAA
4043177 ATTATTATTA
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
28 11 0.26
29 4 0.09
31 3 0.07
32 6 0.14
33 16 0.37
34 3 0.07
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (31 bp):
TATAATATAAATATTAATATATTAAAAATAT
Found at i:4043148 original size:23 final size:22
Alignment explanation
Indices: 4043122--4043188 Score: 61
Period size: 20 Copynumber: 3.1 Consensus size: 22
4043112 TTATTTAAAA
4043122 ATATTATAATATAAATTATTAAT
1 ATATTA-AATATAAATTATTAAT
**
4043145 ATATTAAA-ATTTATT-TTAAT
1 ATATTAAATATAAATTATTAAT
*
4043165 ATA--AAATATTAAATTATTATT
1 ATATTAAATA-TAAATTATTAAT
4043186 ATA
1 ATA
4043189 ATGTAATAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
18 3 0.08
19 1 0.03
20 12 0.33
21 12 0.33
22 2 0.06
23 6 0.17
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
ATATTAAATATAAATTATTAAT
Found at i:4043480 original size:5 final size:5
Alignment explanation
Indices: 4043470--4043495 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
4043460 AAGGGCATGT
4043470 ATGCG ATGCG ATGCG ATGCG ATGCG A
1 ATGCG ATGCG ATGCG ATGCG ATGCG A
4043496 GTAATGTTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.23, C:0.19, G:0.38, T:0.19
Consensus pattern (5 bp):
ATGCG
Found at i:4044896 original size:16 final size:16
Alignment explanation
Indices: 4044884--4044914 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
4044874 GAATATATAT
4044884 TTTAAAAAATATAAAA
1 TTTAAAAAATATAAAA
*
4044900 TTTAAATAATATAAA
1 TTTAAAAAATATAAA
4044915 TTACATCTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (16 bp):
TTTAAAAAATATAAAA
Found at i:4046503 original size:22 final size:21
Alignment explanation
Indices: 4046472--4046512 Score: 73
Period size: 22 Copynumber: 1.9 Consensus size: 21
4046462 TCTTCTTTTT
4046472 ATTTCCTATTTCACATTTTAA
1 ATTTCCTATTTCACATTTTAA
4046493 ATTTCCCTATTTCACATTTT
1 ATTT-CCTATTTCACATTTT
4046513 GGGGTAATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.24, C:0.22, G:0.00, T:0.54
Consensus pattern (21 bp):
ATTTCCTATTTCACATTTTAA
Found at i:4046630 original size:16 final size:16
Alignment explanation
Indices: 4046578--4046630 Score: 63
Period size: 16 Copynumber: 3.4 Consensus size: 16
4046568 ATTCATGTAA
* *
4046578 ATAATAAAAATTTATG
1 ATAATAAAAAATAATG
* *
4046594 ATTATAAATAATAAT-
1 ATAATAAAAAATAATG
4046609 ATAATAAAAAATAATG
1 ATAATAAAAAATAATG
4046625 ATAATA
1 ATAATA
4046631 GCGTGATTTG
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
15 13 0.43
16 17 0.57
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (16 bp):
ATAATAAAAAATAATG
Found at i:4046876 original size:17 final size:17
Alignment explanation
Indices: 4046850--4046885 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
4046840 TATTTATCAC
4046850 ATTCACAAATATAATAA
1 ATTCACAAATATAATAA
*
4046867 ATTCATAAATATAATAA
1 ATTCACAAATATAATAA
4046884 AT
1 AT
4046886 ATGATACGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.33
Consensus pattern (17 bp):
ATTCACAAATATAATAA
Found at i:4047020 original size:2 final size:2
Alignment explanation
Indices: 4047013--4047040 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
4047003 GCTAACAACT
4047013 GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA
4047041 AATCAAGAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:4047270 original size:12 final size:12
Alignment explanation
Indices: 4047251--4047292 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 12
4047241 TTTATTATTT
4047251 AAAA-TATTTTA
1 AAAATTATTTTA
4047262 AAAATTATTTTA
1 AAAATTATTTTA
4047274 TAATTAATTATTTTA
1 -AA--AATTATTTTA
4047289 AAAA
1 AAAA
4047293 ATTTATTAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
11 4 0.15
12 9 0.33
13 2 0.07
14 2 0.07
15 10 0.37
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (12 bp):
AAAATTATTTTA
Found at i:4047280 original size:28 final size:28
Alignment explanation
Indices: 4047230--4047292 Score: 76
Period size: 27 Copynumber: 2.2 Consensus size: 28
4047220 TTATAGGGTA
*
4047230 TTAAAAATGTATTTATTATTTAAAATATT
1 TTAAAAATGTATTTATTAATT-AAATATT
*
4047259 TTAAAAAT-TATTT-TATAATTAATTATT
1 TTAAAAATGTATTTAT-TAATTAAATATT
4047286 TTAAAAA
1 TTAAAAA
4047293 ATTTATTAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
27 14 0.45
28 9 0.29
29 8 0.26
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.51
Consensus pattern (28 bp):
TTAAAAATGTATTTATTAATTAAATATT
Found at i:4047569 original size:16 final size:16
Alignment explanation
Indices: 4047550--4047596 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
4047540 ATATTTACTA
*
4047550 ATATTTATGAATAATT
1 ATATTTATGATTAATT
*
4047566 ATATTTAAT-ATTTATT
1 ATATTT-ATGATTAATT
4047582 ATATTTATGATTAAT
1 ATATTTATGATTAAT
4047597 ATTAATCTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
15 2 0.08
16 22 0.85
17 2 0.08
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.55
Consensus pattern (16 bp):
ATATTTATGATTAATT
Found at i:4048040 original size:27 final size:27
Alignment explanation
Indices: 4048003--4048055 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
4047993 ACTAATTAAA
4048003 TATTATTAATTTATACTAATATTTTTG
1 TATTATTAATTTATACTAATATTTTTG
4048030 TATTATTAATTTATACTAATATTTTT
1 TATTATTAATTTATACTAATATTTTT
4048056 TCCCACATGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.34, C:0.04, G:0.02, T:0.60
Consensus pattern (27 bp):
TATTATTAATTTATACTAATATTTTTG
Found at i:4048356 original size:15 final size:16
Alignment explanation
Indices: 4048336--4048365 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
4048326 TAGTTTATTC
4048336 TATTATC-ATTGTAAG
1 TATTATCAATTGTAAG
4048351 TATTATCAATTGTAA
1 TATTATCAATTGTAA
4048366 TAAAATTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.37, C:0.07, G:0.10, T:0.47
Consensus pattern (16 bp):
TATTATCAATTGTAAG
Found at i:4048836 original size:17 final size:18
Alignment explanation
Indices: 4048798--4048844 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 18
4048788 TCAAAATAAA
*
4048798 ATTTATATTTATATAATT
1 ATTTATTTTTATATAATT
*
4048816 -TTTATTTTTATCT-ATT
1 ATTTATTTTTATATAATT
*
4048832 ATTTAATTTTATA
1 ATTTATTTTTATA
4048845 CATTAAAATT
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
16 3 0.12
17 21 0.88
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (18 bp):
ATTTATTTTTATATAATT
Done.